Phenotype and GWAS Information:

Agronomic Traits

Note: All the agronomic trait is from the article Breeding signatures of rice improvement revealed by a genomic variation map from a large germplasm collection.

Metabolic Traits

Note: All the metabolic trait is from the article Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism. Some metabolics have two replications, the second replication is end with '_2', like 'mr1002_2'.

Search Results:

The detailed information about mr1766 can be find at here.

GWAS Results:

Note: If the P-value of Linear Regression (LR) or Linear Mixed Model (LMM) ≤ 1e-5 or the rank ≤ 20000, the results are saved. Only the LMM results are plotted below.

Significant Candidate Loci (Lead SNP):

Variation IDVariation ID V6ChromosomePositionLR P-value LMM P-value
vg0610852582 sf0610851583 6 10852582 3.93E-07 3.93E-07
vg0321576069 sf0321574579 3 21576069 4.62E-07 4.62E-07
vg0805946030 sf0805945033 8 5946030 2.98E-06 2.98E-06
vg0222002131 sf0221996262 2 22002131 3.24E-06 3.24E-06
vg0124420479 sf0124419435 1 24420479 4.33E-06 4.33E-06